U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    LOC4324940 zinc finger protein STOP1 homolog [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324940, updated on 16-Jul-2024

    Summary

    Go to the top of the page Help
    Gene symbol
    LOC4324940
    Gene description
    zinc finger protein STOP1 homolog
    Locus tag
    OSNPB_010871200
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Also known as
    OsJ_04239
    Expression
    Broad expression in leaves before flowering (RPKM 228.6), roots after flowering (RPKM 179.4) and 6 other tissues See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See LOC4324940 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (38402682..38407083)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (37773939..37778473)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene G-type lectin S-receptor-like serine/threonine-protein kinase At2g19130 Neighboring gene uncharacterized LOC4324939 Neighboring gene bifunctional aspartate aminotransferase and glutamate/aspartate-prephenate aminotransferase Neighboring gene uncharacterized LOC9270135

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Transcriptome profiling of various organs at different developmental stages in rice Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764
    2. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RefSeq

    Process Evidence Code Pubs
    involved_in response to acidic pH IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in response to aluminum ion IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    zinc finger protein STOP1 homolog
    Names
    LOC_Os01g65080
    OSJNBb0008G24.8
    P0039A07.24-1
    Protein STOP1 homolog
    putative transparent testa 1
    putative zinc finger protein

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001396869.1 → NP_001383798.1  zinc finger protein STOP1 homolog

      Status: VALIDATED

      Source sequence(s)
      AK072211, BT129075, CI611458, CI774980
      UniProtKB/Swiss-Prot
      A0A0P0VAW2, Q943I6
      UniProtKB/TrEMBL
      F1DK81
      Conserved Domains (2) summary
      sd00017
      Location:284 → 304
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:282 → 304
      zf-C2H2; Zinc finger, C2H2 type

    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      38402682..38407083
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015785814.3 → XP_015641300.1  zinc finger protein STOP1 homolog isoform X1

      UniProtKB/Swiss-Prot
      A0A0P0VAW2, Q943I6
      UniProtKB/TrEMBL
      F1DK81
      Conserved Domains (2) summary
      sd00017
      Location:284 → 304
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:282 → 304
      zf-C2H2; Zinc finger, C2H2 type
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q943I6.1 GenPept UniProtKB/Swiss-Prot:Q943I6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials